FB2026_01 , released March 12, 2026
FB2026_01 , released March 12, 2026
Gene: Dmel\snRNA:U6atac
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General Information
Symbol
Dmel\snRNA:U6atac
Species
D. melanogaster
Name
small nuclear RNA U6atac
Annotation Symbol
CR32989
Feature Type
snRNA_gene
FlyBase ID
FBgn0041717
Gene Model Status
Current
Stock Availability
3 publicly available
Gene Summary
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

U6atac, l(2)k01105, snRNA:U6atac:29B , U6atac:29B , U6atac snRNA at 29B

Key Links
Genomic Location
Cytogenetic map
29C1-29C1
Sequence location
Recombination map
2-32
RefSeq locus
NT_033779 REGION:8389724..8389820
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (8 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables pre-mRNA 5'-splice site binding
inferred from electronic annotation with Rfam:RF00619
(RNAcentral, 2018-)
enables U4atac snRNA binding
inferred from electronic annotation with Rfam:RF00619
(RNAcentral, 2018-)
Biological Process (4 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
involved_in alternative mRNA splicing, via spliceosome
inferred from mutant phenotype
(Li et al., 2020, Otake et al., 2002)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in mRNA 5'-splice site recognition
inferred from electronic annotation with Rfam:RF00619
(RNAcentral, 2018-)
involved_in mRNA splicing, via spliceosome
inferred from sequence or structural similarity
(Mount and Salz, 2000)
involved_in spliceosomal tri-snRNP complex assembly
inferred from electronic annotation with Rfam:RF00619
(RNAcentral, 2018-)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
part_of U12-type spliceosomal complex
inferred from mutant phenotype
(Li et al., 2020)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
part_of U6atac snRNP
inferred from sequence or structural similarity
(Mount and Salz, 2000)
non-traceable author statement
(Otake et al., 2002)
inferred from electronic annotation with Rfam:RF00619
(RNAcentral, 2018-)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
    -
    Summaries
    Gene Model and Products
    Number of Transcripts
    1
    Number of Unique Polypeptides
    0

    Please see the JBrowse view of Dmel\snRNA:U6atac for information on other features

    To submit a correction to a gene model please use the Contact FlyBase form

    Protein Domains (via Pfam)
    Isoform displayed:
    Pfam protein domains
    InterPro name
    classification
    start
    end
    Protein Domains (via SMART)
    Isoform displayed:
    SMART protein domains
    InterPro name
    classification
    start
    end
    Structure
    RNA 2D structure (Predicted by RNAcentral) (RNAcentral entry URS00005F5A1E)
    Experimentally Determined Structures
    Crossreferences
    Comments on Gene Model
    Transcript Data
    Annotated Transcripts
    Name
    FlyBase ID
    RefSeq ID
    Length (nt)
    snRNA:U6atac-RA
    FBtr0079659
    NR_001626
    97
    Additional Transcript Data and Comments
    Reported size (kB)
    Comments
    External Data
    Crossreferences
    Sequences Consistent with the Gene Model
    Nucleotide / Polypeptide Records
    Mapped Features

    Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\snRNA:U6atac using the Feature Mapper tool.

    External Data
    Crossreferences
    Linkouts
    Expression Data
    Testis-specificity index

    The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

    -0.19

    Transcript Expression
    Additional Descriptive Data
    Marker for
     
    Subcellular Localization
    CV Term
    Polypeptide Expression
    Additional Descriptive Data
    Marker for
     
    Subcellular Localization
    CV Term
    Evidence
    References
    part_of U12-type spliceosomal complex
    inferred from mutant phenotype
    (Li et al., 2020)
    Expression Deduced from Reporters
    High-Throughput Expression Data
    Associated Tools

    JBrowse - Visual display of RNA-Seq signals

    View Dmel\snRNA:U6atac in JBrowse
    Bulk Downloads
    RNA-Seq RPKM values for all genes
    Reference
    See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
    Developmental Proteome: Life Cycle
    Developmental Proteome: Embryogenesis
    External Data and Images
    Linkouts
    DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
    EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
    FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
    Images
    FlyBase Wiki
    Image Based Resources
    Alleles, Insertions, Transgenic Constructs, and Aberrations
    Classical and Insertion Alleles ( 2 )
    For All Classical and Insertion Alleles Show
     
    Other relevant insertions
    Transgenic Constructs ( 2 )
    For All Alleles Carried on Transgenic Constructs Show
    Transgenic constructs containing/affecting coding region of snRNA:U6atac
    Transgenic constructs containing regulatory region of snRNA:U6atac
    Aberrations (Deficiencies and Duplications) ( 3 )
    Variants
    Variant Molecular Consequences
    Alleles Representing Disease-Implicated Variants
    Phenotypes
    Orthologs
    Downloads
    Download All DIOPT Orthologs
    Human Orthologs (via DIOPT v9.1)
    Species\Gene Symbol
    Score
    Best Score
    Best Reverse Score
    Source
    Compara
    Domainoid
    eggNOG
    Hieranoid
    Homologene
    Inparanoid
    OMA
    OrthoDB
    OrthoFinder
    OrthoInspector
    orthoMCL
    Panther
    Phylome
    SonicParanoid
    Alignment
    Complementation?
    Transgene?
    Homo sapiens (Human) (0)
    Model Organism Orthologs (via DIOPT v9.1)
    Species\Gene Symbol
    Score
    Best Score
    Best Reverse Score
    Source
    Compara
    Domainoid
    eggNOG
    Hieranoid
    Homologene
    Inparanoid
    OMA
    OrthoDB
    OrthoFinder
    OrthoInspector
    orthoMCL
    Panther
    Phylome
    SonicParanoid
    Alignment
    Complementation?
    Transgene?
    Rattus norvegicus (Norway rat) (0)
    Mus musculus (laboratory mouse) (0)
    Xenopus tropicalis (Western clawed frog) (0)
    Danio rerio (Zebrafish) (0)
    Caenorhabditis elegans (Nematode, roundworm) (0)
    Anopheles gambiae (African malaria mosquito) (0)
    Arabidopsis thaliana (thale-cress) (0)
    Saccharomyces cerevisiae (Brewer's yeast) (0)
    Schizosaccharomyces pombe (Fission yeast) (0)
    Escherichia coli (enterobacterium) (0)
    Other Organism Orthologs (via OrthoDB)
    Data provided directly from OrthoDB:snRNA:U6atac. Refer to their site for version information.
    Paralogs
    Downloads
    Download All DIOPT Paralogs
    Paralogs (via DIOPT v9.1)
    Human Disease Associations
    FlyBase Human Disease Model Reports
      Disease Ontology (DO) Annotations
      Models Based on Experimental Evidence ( 0 )
      Allele
      Disease
      Evidence
      References
      Potential Models Based on Orthology ( 0 )
      Human Ortholog
      Disease
      Evidence
      References
      Modifiers Based on Experimental Evidence ( 0 )
      Allele
      Disease
      Interaction
      References
      Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
      Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
      Homo sapiens (Human)
      Gene name
      Score
      OMIM
      OMIM Phenotype
      DO term
      Complementation?
      Transgene?
      Functional Complementation Data
      Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
      Interactions
      Summary of Physical Interactions
      Interaction Browsers
      Summary of Genetic Interactions
      Interaction Browsers
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      External Data
      Linkouts
      Pathways
      Signaling Pathways (FlyBase)
      Metabolic Pathways
      FlyBase
      External Links
      External Data
      Linkouts
      Class of Gene
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      2L
      Recombination map
      2-32
      Cytogenetic map
      29C1-29C1
      Sequence location
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      29C1-29C1
      Limits computationally determined from genome sequence between P{lacW}l(2)k12914k12914&P{lacW}Akap200k07118a and P{lacW}l(2)k03706k03706&P{lacW}Acerk07704
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      29B-29B
      (Mount, 2000.5)
      29C1-29C2
      (determined by in situ hybridisation)
      (Spradling et al., 1999)
      29C1-29C2
      (BDGP Project Members, 1994-1999)
      Experimentally Determined Recombination Data
      Location

      2-32

      (FlyBase, 2016)

      2-27.7

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (3)
      Genomic Clones (16)
       

      Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

      cDNA Clones (2)
       

      Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

      cDNA clones, fully sequenced
      BDGP DGC clones
        Other clones
          Drosophila Genomics Resource Center cDNA clones

          For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

            cDNA Clones, End Sequenced (ESTs)
            BDGP DGC clones
              Other clones
                RNAi and Array Information
                Linkouts
                Antibody Information
                Laboratory Generated Antibodies
                 
                Commercially Available Antibodies
                 
                Cell Line Information
                Publicly Available Cell Lines
                 
                  Other Stable Cell Lines
                   
                    Other Comments

                    New annotation (CR32989) in release 3 of the genome annotation.

                    (FlyBase Genome Annotators, 2002-2003)

                    Required for excision of U12 type introns.

                    (Otake et al., 2002)

                    Coordinates (on date of analysis) on AE003621:31949..32045 .

                    (Mount, 2000.5)

                    Gene isolated in a screen of the second chromosome identifying mutants affecting disc morphology.

                    (Roch et al., 1998)
                    Relationship to Other Genes
                    Source for database merge of

                    Source for merge of: snRNA:U6atac:29B l(2)k01105

                    (Otake et al., 2002)
                    Additional comments
                    Nomenclature History
                    Source for database identify of

                    Source for identity of: snRNA:U6atac snRNA:U6atac:29B

                    (FlyBase, 2009-)
                    Nomenclature comments

                    The '29B' suffix has been removed from the symbol/name of this gene as there is a single characterized U6atac snRNA gene in D. melanogaster - thus the suffix was superfluous and wrongly implied there are additional copies.

                    (FlyBase, 2009-)
                    Etymology
                    Synonyms and Secondary IDs (10)
                    Datasets (0)
                    Study focus (0)
                    Experimental Role
                    Project
                    Project Type
                    Title
                    Study result (0)
                    Result
                    Result Type
                    Title
                    External Crossreferences and Linkouts ( 12 )
                    Sequence Crossreferences
                    NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
                    GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
                    RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
                    RNAcentral - A comprehensive ncRNA sequence collection representing all ncRNA types from a broad range of organisms
                    Other crossreferences
                    DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
                    EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
                    FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
                    FlyMine - An integrated database for Drosophila genomics
                    KEGG Genes - Molecular building blocks of life in the genomic space.
                    MARRVEL_MODEL - MARRVEL (model organism gene)
                    Linkouts
                    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
                    References (28)